Comparisons of the genetic structure of populations of Turnip mosaic virus in West and East Eurasia

Kenta Tomimura; Josef Špak; Nikos Katis; Carol E. Jenner; John A. Walsh; Adrian J. Gibbs; Kazusato Ohshima

doi:10.1016/j.virol.2004.09.040

Comparisons of the genetic structure of populations of Turnip mosaic virus in West and East Eurasia

Kenta Tomimura, Josef Špak, Nikos Katis, Carol E. Jenner, John A. Walsh, Adrian J. Gibbs, Kazusato Ohshima

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Abstract

The genetic structure of populations of Turnip mosaic virus in Eurasia was assessed by making host range and gene sequence comparisons of 142 isolates. Most isolates collected in West Eurasia infected Brassica plants whereas those from East Eurasia infected both Brassica and Raphanus plants. Analyses of recombination sites (RSs) in five regions of the genome (one third of the full sequence) showed that the protein 1 (P1 gene) had recombined more frequently than the other gene regions in both subpopulations, but that the RSs were located in different parts of the genomes of the subpopulations. Estimates of nucleotide diversity showed that the West Eurasian subpopulation was more diverse than the East Eurasian subpopulation, but the Asian-BR group of the genes from the latter subpopulation had a greater nonsynonymous/synonymous substitution ratio, especially in the P1, viral genome-linked protein (VPg) and nuclear inclusion a proteinase (NIa-Pro) genes. These subpopulations seem to have evolved independently from the ancestral European population, and their genetic structure probably reflects founder effects.

Original language	English
Pages (from-to)	408-423
Number of pages	16
Journal	Virology
Volume	330
Issue number	2
DOIs	https://doi.org/10.1016/j.virol.2004.09.040
Publication status	Published - 20 Dec 2004

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10.1016/j.virol.2004.09.040

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title = "Comparisons of the genetic structure of populations of Turnip mosaic virus in West and East Eurasia",

abstract = "The genetic structure of populations of Turnip mosaic virus in Eurasia was assessed by making host range and gene sequence comparisons of 142 isolates. Most isolates collected in West Eurasia infected Brassica plants whereas those from East Eurasia infected both Brassica and Raphanus plants. Analyses of recombination sites (RSs) in five regions of the genome (one third of the full sequence) showed that the protein 1 (P1 gene) had recombined more frequently than the other gene regions in both subpopulations, but that the RSs were located in different parts of the genomes of the subpopulations. Estimates of nucleotide diversity showed that the West Eurasian subpopulation was more diverse than the East Eurasian subpopulation, but the Asian-BR group of the genes from the latter subpopulation had a greater nonsynonymous/synonymous substitution ratio, especially in the P1, viral genome-linked protein (VPg) and nuclear inclusion a proteinase (NIa-Pro) genes. These subpopulations seem to have evolved independently from the ancestral European population, and their genetic structure probably reflects founder effects.",

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author = "Kenta Tomimura and Josef {\v S}pak and Nikos Katis and Jenner, {Carol E.} and Walsh, {John A.} and Gibbs, {Adrian J.} and Kazusato Ohshima",

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doi = "10.1016/j.virol.2004.09.040",

language = "English",

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AU - Tomimura, Kenta

AU - Špak, Josef

AU - Katis, Nikos

AU - Jenner, Carol E.

AU - Walsh, John A.

AU - Gibbs, Adrian J.

AU - Ohshima, Kazusato

PY - 2004/12/20

Y1 - 2004/12/20

N2 - The genetic structure of populations of Turnip mosaic virus in Eurasia was assessed by making host range and gene sequence comparisons of 142 isolates. Most isolates collected in West Eurasia infected Brassica plants whereas those from East Eurasia infected both Brassica and Raphanus plants. Analyses of recombination sites (RSs) in five regions of the genome (one third of the full sequence) showed that the protein 1 (P1 gene) had recombined more frequently than the other gene regions in both subpopulations, but that the RSs were located in different parts of the genomes of the subpopulations. Estimates of nucleotide diversity showed that the West Eurasian subpopulation was more diverse than the East Eurasian subpopulation, but the Asian-BR group of the genes from the latter subpopulation had a greater nonsynonymous/synonymous substitution ratio, especially in the P1, viral genome-linked protein (VPg) and nuclear inclusion a proteinase (NIa-Pro) genes. These subpopulations seem to have evolved independently from the ancestral European population, and their genetic structure probably reflects founder effects.

AB - The genetic structure of populations of Turnip mosaic virus in Eurasia was assessed by making host range and gene sequence comparisons of 142 isolates. Most isolates collected in West Eurasia infected Brassica plants whereas those from East Eurasia infected both Brassica and Raphanus plants. Analyses of recombination sites (RSs) in five regions of the genome (one third of the full sequence) showed that the protein 1 (P1 gene) had recombined more frequently than the other gene regions in both subpopulations, but that the RSs were located in different parts of the genomes of the subpopulations. Estimates of nucleotide diversity showed that the West Eurasian subpopulation was more diverse than the East Eurasian subpopulation, but the Asian-BR group of the genes from the latter subpopulation had a greater nonsynonymous/synonymous substitution ratio, especially in the P1, viral genome-linked protein (VPg) and nuclear inclusion a proteinase (NIa-Pro) genes. These subpopulations seem to have evolved independently from the ancestral European population, and their genetic structure probably reflects founder effects.

KW - Eurasia

KW - Genetic structure

KW - Population

KW - Potyvirus

KW - Recombination

KW - Selection

KW - TuMV

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DO - 10.1016/j.virol.2004.09.040

M3 - Article

SN - 0042-6822

VL - 330

SP - 408

EP - 423

JO - Virology

JF - Virology

IS - 2

ER -

Comparisons of the genetic structure of populations of Turnip mosaic virus in West and East Eurasia

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